Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative polypeptide N-acetylgalactosaminyltransferase 9.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_3 g2201 g2201.t4 isoform g2201.t4 15949432 15950456
chr_3 g2201 g2201.t4 exon g2201.t4.exon1 15949432 15949509
chr_3 g2201 g2201.t4 cds g2201.t4.CDS1 15949444 15949509
chr_3 g2201 g2201.t4 exon g2201.t4.exon2 15949569 15949644
chr_3 g2201 g2201.t4 cds g2201.t4.CDS2 15949569 15949644
chr_3 g2201 g2201.t4 exon g2201.t4.exon3 15949705 15950456
chr_3 g2201 g2201.t4 cds g2201.t4.CDS3 15949705 15950456
chr_3 g2201 g2201.t4 TTS g2201.t4 15950464 15950464
chr_3 g2201 g2201.t4 TSS g2201.t4 NA NA

Sequences

>g2201.t4 Gene=g2201 Length=906
TTTGATTGGCATATGGTATCAGAAAGAGAAAGAAAACGTAAGCAAAATCCATGGGAACCA
ACTTTTTCACCAACTATGGCTGGTGGTTTATTTTCAATTGACAAAGAATTCTTCATAAAA
TTGGGACTTTATGATGATGGTTTTGATATTTGGGGTGGTGAAAATCTCGAATTAAGTTTT
AAAACTTGGATGTGCGGCGGAACTTTGGAAATAATTCCATGCTCTCACGTTGGACACATC
TTTAGAAAAAAATCTCCATATAAATGGCGACCAGGAGTTGATGTGCTAAAAATAAATACA
ATAAGACTTGTTGAAGTGTGGCTTGATGATTATGCTAAATTCTATTATGTTAGAAGAGGC
GCAGACAAAGGAAATTTTGGTGATATTTCATCAAGAGTGGAATTAAGGAAAAATTTAAAT
TGCAAAAGTTTTAAATGGTACTTGGAAAATGTCTATCCAGAACAGATTGTGCCAGATAAT
CTTGGTGAAGGTTATATTAAAAATATTGGACTTGATAATTCACCATGCCTTGATGCTCCA
ATAATAGACAGTCAAATGAAAACTCAAGTGGCATTTTATGGATGTCATAATATGGGTGGA
AATCAATTTTTTGAATTTTCTCGTGATCATGAAATCAAAAGAAAAGAGCGATGTTTAGAT
TATTCAAAAGATACAAATGAATTAGCATTTGTGCCGTGTCACAAAAGCAAAGGCAATCAA
TACTGGTCTTATATCATAGACACAAAACAATTTTATCATAAGCAGTCCAACAGATGTCTT
TCATTAGAGCGACAAAGTTATACATATTTGCCATCAATGGTGCATTGTGATGAAAAGAGT
AAAAATCAACAATGGGAATTTCAATATGTTTATCCAGAAAAATTTAATAAAAAAACCACA
AATTGA

>g2201.t4 Gene=g2201 Length=297
MVSERERKRKQNPWEPTFSPTMAGGLFSIDKEFFIKLGLYDDGFDIWGGENLELSFKTWM
CGGTLEIIPCSHVGHIFRKKSPYKWRPGVDVLKINTIRLVEVWLDDYAKFYYVRRGADKG
NFGDISSRVELRKNLNCKSFKWYLENVYPEQIVPDNLGEGYIKNIGLDNSPCLDAPIIDS
QMKTQVAFYGCHNMGGNQFFEFSRDHEIKRKERCLDYSKDTNELAFVPCHKSKGNQYWSY
IIDTKQFYHKQSNRCLSLERQSYTYLPSMVHCDEKSKNQQWEFQYVYPEKFNKKTTN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g2201.t4 CDD cd00161 RICIN 160 283 0.0000000
9 g2201.t4 Gene3D G3DSA:3.90.550.10 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 1 155 0.0000000
8 g2201.t4 Gene3D G3DSA:2.80.10.50 - 156 290 0.0000000
3 g2201.t4 PANTHER PTHR11675 N-ACETYLGALACTOSAMINYLTRANSFERASE 3 285 0.0000000
4 g2201.t4 PANTHER PTHR11675:SF112 POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 9-RELATED 3 285 0.0000000
1 g2201.t4 Pfam PF02709 N-terminal domain of galactosyltransferase 19 73 0.0000078
2 g2201.t4 Pfam PF00652 Ricin-type beta-trefoil lectin domain 160 281 0.0000000
10 g2201.t4 ProSiteProfiles PS50231 Lectin domain of ricin B chain profile. 158 284 21.4590000
7 g2201.t4 SMART SM00458 ricin_3 159 284 0.0000000
6 g2201.t4 SUPERFAMILY SSF53448 Nucleotide-diphospho-sugar transferases 11 150 0.0000000
5 g2201.t4 SUPERFAMILY SSF50370 Ricin B-like lectins 154 284 0.0000000

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed